gatk3的最后一个经典版本3.8

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Geraldine Van der Auwera a6f632874b Various documentation improvements - Edited intervals merging docs for correctness & clarity - Edited VQSR arg docs and made mode required (+added -mode SNP to VQSR tests) - Moved PaperGenotyper to Toy Walkers to declutter the actually useful docs - Moved GenotypeGVCFs to Variant Discovery category and clarified a few points - Clarified that the -resource argument depends on using the -V:tag format - Clarified how the pcr indel model works - Added caveat for -U ALLOW_N_CIGAR_READS - Added MathJax support for displaying equations in GATKDocs - Updated HC example commands and caveats		2014-07-14 12:03:03 -04:00
licensing	deleted old license files	2013-07-02 16:36:47 -04:00
protected	Various documentation improvements	2014-07-14 12:03:03 -04:00
public	Various documentation improvements	2014-07-14 12:03:03 -04:00
settings/helpTemplates	Various documentation improvements	2014-07-14 12:03:03 -04:00
.gitignore	Fixed bug using GraphBased due to infinite likelihoods resulting from the calculation of alignment cost of very long insertion or deletions (done in linear scale)	2014-04-01 16:14:52 -04:00
README.md	Update README file for the 2.6 release	2013-06-20 13:08:29 -04:00
ant-bridge.sh	Refactored maven directories and java packages replacing "sting" with "gatk".	2014-05-19 17:36:39 -04:00
intellij_example.tar.bz2	Removed the intellij files from the root and made an example package for new users. This allows users to start at the same page and then change it as they see fit without interfering with the repo (thanks guillermo!)	2012-09-27 11:04:56 -04:00
pom.xml	Fixed minor pom.xml line that was out of place after sortpom.	2014-06-26 01:01:19 +08:00

README.md

The Genome Analysis Toolkit

See http://www.broadinstitute.org/gatk/